Research Article

Analysis of SSR Information of Flower Transcriptome in Loquat  

Yan Fu1 , Yang Qin2
1 Qiandongnan National Polytechnic, Kaili, 556000, China
2 College of Life and Health Science, Kaili University, Kaili, 556000, China
Author    Correspondence author
Molecular Plant Breeding, 2023, Vol. 14, No. 6   doi: 10.5376/mpb.2023.14.0006
Received: 08 Mar., 2023    Accepted: 18 Mar., 2023    Published: 03 May, 2023
© 2023 BioPublisher Publishing Platform
This article was first published in Molecular Plant Breeding in Chinese, and here was authorized to translate and publish the paper in English under the terms of Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article:

Fu Y., and Yang Q., 2023, Analysis of SSR information of flower transcriptome in loquat, Molecular Plant Breeding, 14(6): 1-8 (doi: 10.5376/mpb.2023.14.0006)


In order to provide scientific basis for studying the genetic diversity and molecular marker-assisted breeding of loquat, new molecular markers of loquat were developed by analyzing flower transcriptome data. In this study, MIcroSAtellite (MISA) and Blast2GO were used for SSR searching, screening, identification, and analysis of non-redundant Unigenes, and Primer 3 was used for SSR primer design. A search found that 28 617 Unigenes contained 44 622 SSR loci, and the frequency of occurrence of SSR loci was 47.51%, and the total average distribution distance was 4.87 kb. Mononucleotide and dinucleotide repeats were the main repeat types of SSR in the loquat flower transcriptome that the SSR of mononucleotide and dinucleotide repeats accounted for 52.09% and 32.83% of the total SSR, respectively. The dominant repeat motifs were A/T and AG/CT, which accounted for 50.94% and 26.70% of the mononucleotide repeats and dinucleotide respectively, and the 65.79% length of motif was concentrated in 12~20 bp. Gene Ontology (GO) functional classification showed that 28 617 loquat flower transcriptome Unigenes containing SSR loci were enriched in 51 GO terms of the 3 GO categories, and the biological process category involved the most GO terms (21). Primers for 34 301 SSR sequences were successfully designed, with a success rate of 76.87%. It is shown by the analysis that the flower transcriptome SSR loci had high frequency, high distribution density, and high polymorphism potential and could provide abundant repeat types. These could provide scientific basis for studying quantitative trait loci mapping, molecular marker-assisted breeding, genome evolution, genetic diversity analysis.

Loquat (Eriobotrya japonica); Flower; Transcriptome; SSR; Primer design
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